RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 030402
(178 letters)
>d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Methanococcus jannaschii [TaxId: 2190]}
Length = 225
Score = 81.1 bits (199), Expect = 5e-20
Identities = 56/171 (32%), Positives = 79/171 (46%), Gaps = 11/171 (6%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
I+GIDEAGRGPVLGPMV ++ L L DSK L + KR L + L+ V
Sbjct: 3 IIGIDEAGRGPVLGPMVVCAFAIEKEREEELKKLGVKDSKELTKNKRAYLKKLLENLGYV 62
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGD---- 131
+ + +N N I +N + + LNI E+Y+D
Sbjct: 63 EKRILEAEEINQLMNSINLNDIEIN--AFSKVAKNLIEKLNIRDDEIEIYIDACSTNTKK 120
Query: 132 -----AEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFERMD 177
+K + + +R +IK + KAD+ YPVVS ASI+AK E +D
Sbjct: 121 FEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVSAASIIAKAERDEIID 171
>d1io2a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Thermococcus kodakaraensis [TaxId: 311400]}
Length = 213
Score = 77.1 bits (189), Expect = 2e-18
Identities = 47/164 (28%), Positives = 79/164 (48%), Gaps = 11/164 (6%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
I GIDEAGRGPV+GPMV + + L L DSK L ++RE+LF ++
Sbjct: 3 IAGIDEAGRGPVIGPMVIAAVVVDENSLPKLEELKVRDSKKLTPKRREKLFNEIL-GVLD 61
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEK 134
+ + + P + ++ ++ + ++ + +Y D D E+
Sbjct: 62 DYVILELPPDVIGSRE--------GTLNEFEVENFAKALNSLKVKPDVIYADAADVDEER 113
Query: 135 YQAKLSQRFPSIKFVVSK-KADSLYPVVSGASIVAKRSNFERMD 177
+ +L +R VV+K KAD ++PVVS ASI+AK + ++
Sbjct: 114 FARELGERLNFEAEVVAKHKADDIFPVVSAASILAKVTRDRAVE 157
>d1uaxa_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Pyrococcus horikoshii [TaxId: 53953]}
Length = 211
Score = 68.7 bits (167), Expect = 2e-15
Identities = 42/157 (26%), Positives = 74/157 (47%), Gaps = 11/157 (7%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
+ G+DEAGRGPV+GP+V G + L + DSK L +RE+ ++
Sbjct: 3 VAGVDEAGRGPVIGPLVIGVAVIDEKNIERLRDIGVKDSKQLTPGQREK-LFSKLIDILD 61
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKY 135
+ V ++ P+E+ + + N++ + + ++ I ++Y+D+ K
Sbjct: 62 DYYVLLVTPKEIDERHHSMNELEAEKFVV--------ALNSLRIKPQKIYVDSADVDPKR 113
Query: 136 QAKLSQRFPSIKFVVS--KKADSLYPVVSGASIVAKR 170
A L + + V KAD+ Y +VS ASI+AK
Sbjct: 114 FASLIKAGLKYEATVIAEHKADAKYEIVSAASIIAKV 150
>d1i39a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Archaeoglobus fulgidus [TaxId: 2234]}
Length = 200
Score = 60.7 bits (146), Expect = 2e-12
Identities = 43/160 (26%), Positives = 72/160 (45%), Gaps = 12/160 (7%)
Query: 18 GIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGW 77
GIDEAG+G V+GP+V + C + L L DSK L + +REEL E+++
Sbjct: 4 GIDEAGKGCVIGPLVVAGVACS--DEDRLRKLGVKDSKKLSQGRREELAEEIRKICR--T 59
Query: 78 AVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQA 137
V + P L +M K + + + I + Y+D+ + +
Sbjct: 60 EVLKVSPENLDERMAAKTINEILKECYAEIILRLKP--------EIAYVDSPDVIPERLS 111
Query: 138 KLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFERMD 177
+ + ++ V KAD YP+V+ ASI+AK ++
Sbjct: 112 RELEEITGLRVVAEHKADEKYPLVAAASIIAKVEREREIE 151
>d2etja1 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase HII)
{Thermotoga maritima [TaxId: 2336]}
Length = 221
Score = 58.9 bits (142), Expect = 1e-11
Identities = 35/154 (22%), Positives = 60/154 (38%), Gaps = 29/154 (18%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
+ G+DEAGRG + GP+V + + DSK L KRE L +++ +V
Sbjct: 14 VAGVDEAGRGCLAGPVVAAAVVLEKEIE------GINDSKQLSPAKRERLLDEIMEKAAV 67
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKY 135
G + + + N I + + + + + N+ + + V +D G
Sbjct: 68 GIGIASPEEID-----------LYN-IFNATKLAMNRALENLSVKPSFVLVDGKGI---- 111
Query: 136 QAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAK 169
S+ K D ++ ASIVAK
Sbjct: 112 -------ELSVPGTCLVKGDQKSKLIGAASIVAK 138
>d1vzya2 g.81.1.1 (A:234-290) HSP33, C-terminal domain {Bacillus
subtilis [TaxId: 1423]}
Length = 57
Score = 25.4 bits (56), Expect = 0.87
Identities = 6/32 (18%), Positives = 17/32 (53%), Gaps = 5/32 (15%)
Query: 37 YCPCSYQQTLATLNFADSKTLKEEKREELFED 68
+CPCS ++ + L +++ +++ E+
Sbjct: 1 HCPCSKERFETAI-----LGLGKKEIQDMIEE 27
>d1k8ka2 c.55.1.1 (A:161-418) Actin-related protein 3, Arp3 {Cow
(Bos taurus) [TaxId: 9913]}
Length = 258
Score = 25.9 bits (56), Expect = 2.9
Identities = 22/167 (13%), Positives = 46/167 (27%), Gaps = 30/167 (17%)
Query: 37 YCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNK 96
+ N D+ K K+ + +++D+ R L ++ +
Sbjct: 70 RYSYVCPDLVKEFNKYDTDGSKWIKQYTGINAISKK---EFSIDVGYERFLGPEIFFHPE 126
Query: 97 INLNEIS---HDSAIGLIT-------RVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPS- 145
+ + + +I R L I+L+ + Q L + +
Sbjct: 127 FANPDFTQPISEVVDEVIQNCPIDVRRPLYKNIVLSGGSTMFRDFGRRLQRDLKRTVDAR 186
Query: 146 ----------------IKFVVSKKADSLYPVVSGASIVAKRSNFERM 176
I V Y V G S++A F ++
Sbjct: 187 LKLSEELSGGRLKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYQV 233
>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a
[TaxId: 10090]}
Length = 349
Score = 26.1 bits (56), Expect = 3.0
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 38 CPCSYQQTLATLNFAD 53
+Y +TL+TL +AD
Sbjct: 331 ADINYDETLSTLRYAD 346
>d2fxua2 c.55.1.1 (A:147-371) Actin {Cow (Bos taurus) [TaxId: 9913]}
Length = 225
Score = 25.5 bits (55), Expect = 3.5
Identities = 10/37 (27%), Positives = 18/37 (48%)
Query: 140 SQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFERM 176
+ ++K + + Y V G SI+A S F++M
Sbjct: 173 ALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQM 209
>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional)
{Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId:
4932]}
Length = 342
Score = 25.7 bits (55), Expect = 3.8
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 38 CPCSYQQTLATLNFAD 53
+TL +L FA
Sbjct: 319 SSSHINETLNSLRFAS 334
>d1xjha_ g.81.1.1 (A:) HSP33, C-terminal domain {Escherichia coli
[TaxId: 562]}
Length = 62
Score = 23.5 bits (51), Expect = 4.8
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 5/32 (15%)
Query: 37 YCPCSYQQTLATLNFADSKTLKEEKREELFED 68
C CS ++ L KTL +E+ + + +
Sbjct: 6 KCTCSRERCADAL-----KTLPDEEVDSILAE 32
>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId:
10090]}
Length = 362
Score = 25.2 bits (54), Expect = 5.3
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 38 CPCSYQQTLATLNFAD 53
S + TL TL +AD
Sbjct: 341 GISSCEYTLNTLRYAD 356
>d1bg2a_ c.37.1.9 (A:) Kinesin {Human (Homo sapiens) [TaxId: 9606]}
Length = 323
Score = 25.2 bits (54), Expect = 5.6
Identities = 4/16 (25%), Positives = 7/16 (43%)
Query: 38 CPCSYQQTLATLNFAD 53
+ +T +TL F
Sbjct: 303 SSYNESETKSTLLFGQ 318
>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional)
{Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Length = 368
Score = 25.3 bits (54), Expect = 5.8
Identities = 4/16 (25%), Positives = 9/16 (56%)
Query: 38 CPCSYQQTLATLNFAD 53
+Q+++ +L FA
Sbjct: 348 FQDCFQESVKSLRFAA 363
>d1jhga_ a.4.12.1 (A:) Trp repressor, TrpR {Escherichia coli [TaxId:
562]}
Length = 101
Score = 24.0 bits (52), Expect = 6.2
Identities = 13/78 (16%), Positives = 31/78 (39%), Gaps = 17/78 (21%)
Query: 54 SKTLKEEKREE---LFEDLKVNDSVGWAVDIID----PRELS--------AKMLNKNKIN 98
S + E++ +E + LK + +++ P E + L + +++
Sbjct: 1 SAAMAEQRHQEWLRFVDLLKNAYQNDLHLPLLNLMLTPDEREALGTRVRIIEELLRGEMS 60
Query: 99 LNEISHDSAIGL--ITRV 114
E+ ++ G+ ITR
Sbjct: 61 QRELKNELGAGIATITRG 78
>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}
Length = 354
Score = 24.9 bits (53), Expect = 7.1
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 38 CPCSYQQTLATLNFAD 53
+ +TL+TL F
Sbjct: 309 SSYNDAETLSTLRFGM 324
>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium
falciparum) [TaxId: 5833]}
Length = 330
Score = 24.6 bits (52), Expect = 7.6
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 38 CPCSYQQTLATLNFAD 53
+QTL TL ++
Sbjct: 311 TISCCEQTLNTLRYSS 326
>d1x88a1 c.37.1.9 (A:18-362) Kinesin {Human (Homo sapiens), mitotic
kinesin eg5 [TaxId: 9606]}
Length = 345
Score = 24.6 bits (52), Expect = 8.2
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 38 CPCSYQQTLATLNFAD 53
+ ++TL+TL +A
Sbjct: 322 ASLNLEETLSTLEYAH 337
>d1sdma_ c.37.1.9 (A:) Kinesin heavy chain-like protein {Potato
(Solanum tuberosum) [TaxId: 4113]}
Length = 364
Score = 24.6 bits (52), Expect = 9.1
Identities = 3/16 (18%), Positives = 7/16 (43%)
Query: 38 CPCSYQQTLATLNFAD 53
+ +T +L +A
Sbjct: 302 AESNLDETHNSLTYAS 317
>d1on3a2 c.14.1.4 (A:261-524) Methylmalonyl-CoA carboxyltransferase
(transcarboxylase 12S) {Propionibacterium freudenreichii
[TaxId: 1744]}
Length = 264
Score = 24.3 bits (52), Expect = 9.1
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 58 KEEKREELFEDLKVNDSVGWAVDIIDPREL 87
K E+ + F V + G D+IDP +
Sbjct: 207 KIEEYQNAFNTPYVAAARGQVDDVIDPADT 236
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.317 0.134 0.389
Gapped
Lambda K H
0.267 0.0433 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 619,242
Number of extensions: 26044
Number of successful extensions: 59
Number of sequences better than 10.0: 1
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 21
Length of query: 178
Length of database: 2,407,596
Length adjustment: 80
Effective length of query: 98
Effective length of database: 1,309,196
Effective search space: 128301208
Effective search space used: 128301208
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.8 bits)